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DESCRIPTION
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DESCRIPTION
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Package: QuantumClone
Title: Clustering Mutations using High Throughput Sequencing (HTS) Data
Version: 1.0.0.9
Authors@R: person("Paul", "Deveau", role = c("aut", "cre"),
email = "quantumclone.package@gmail.com")
Description: Using HTS data, clusters mutations in order to recreate putative
clones from the data provided. It requires genotype at the location of the
variant as well as the depth of coverage and number of reads supporting the
mutation. Additional information may be provided, such as the contamination
in the tumor sample. This package also provides a function QuantumCat which
simulates data obtained from tumor sequencing.See for details: Deveau et al
(2018) <doi:10.1093/bioinformatics/bty016>.
URL:
https://github.com/DeveauP/QuantumClone
BugReports:
https://github.com/DeveauP/QuantumClone/issues
Depends:
R (>= 3.1.0),
compiler,
foreach
Imports:
doParallel,
parallel,
gridExtra,
ggplot2,
NbClust,
DEoptim,
optimx,
fpc
Suggests:
knitr,rmarkdown,testthat
License: GPL-2
LazyData: true
VignetteBuilder: knitr
RoxygenNote: 7.1.2